I cannot give any more information on where the loops and markers are. 
They are created using audio software.

It does not matter if SoX would not include features like these. I 
thought I'd make my perfectly legitimate request.... I tried.

I'll just have to be patient and do the job manually.

Thanks everyone for your interaction in trying to solve my difficulty. 
SoX was recommended to me by a friend with whom I create samplesets. I 
took up that recommendation but clearly this is not the software I need,

Apologies for any inconvenience caused. At least I got as far as merging 
two files using a bat process. Re-creating loops and markers and 
checking each is as much of a task as the process at hand so might as 
well just get on with it.

Best wishes to all,

Mark


On 08/12/2016 20:58, fmiser wrote:
>>>> Dr. Mark Bugeja wrote:
>>>>
>>>> If Sox does not preserve loops and cues yet.... then please
>>>> add that to the wish list. It would be very handy for several
>>>> people doing serious digital sound processing. :-)
> Keep in mind, SoX is used by a lot of us for a lot of
> different tasks.  The one task you are wanting to us it for
> (joint two mono files into a stereo file) is a very tiny piece
> of what SoX can do.
>>>   Peter wrote:
>>>
>>> I was thinking about the problem of markers in the file
>>> headers when mixing files together, as Dr. Mark is trying to
>>> do. What if the markers in the left channel and the right
>>> channel are not completely identical? I think this is a more
>>> complicated task than just copying input file markers to the
>>> output file when mixing.
>> Dr. wrote:
>> They are *identical*...
> In _your_ case, they are identical.  But a SoX effect or
> function can't be added just for _your_ case.  At least, not
> if it doesn't behave well for other cases.
>
>> ... and most probably created
> So what should SoX do if it happens to be something other than
> "most probably"?  SoX is good partly because it does work so
> predictably even when doing odd or unusual things.
>> The separation must have been done after to accommodate
>> for Hauptwerk software's special features.
> Again - in your case.  There is no guarantee, or even a high
> probability,  that other people and other files would be the
> same situation.
>
> Something like "preserving loops and cues" has the potential for
> being tricky for the reasons Peter wrote.  Then, as Jeremy pointed
> out, they may be in a sidecar file and not in the audio file
> itself.
>
> Have you tested the stereo file you made using SoX?  Are the
> markers intact?  If so, your situation is resolved.  If not -
> maybe there is a way to copy the info from one of the mono
> files to the stereo file.
>
> But so far, I haven't seen from you what these "loops and
> cues" are.  You described how you use them - but is it in the
> header?  If so, where?  If not the header, then where is it?
> Is it in a sidecar file like Jeremy described?
>
>
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